HEADER LIGASE/INHIBITOR 25-JAN-12 4DG9 TITLE STRUCTURE OF HOLO-PA1221, AN NRPS PROTEIN CONTAINING ADENYLATION AND TITLE 2 PCP DOMAINS BOUND TO VINYLSULFONAMIDE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PA1221; COMPND 3 CHAIN: A; COMPND 4 EC: 6.2.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: PA01; SOURCE 5 GENE: PA1221; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET15BTEV; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15BTEVP21 KEYWDS ANL SUPERFAMILY, ADENYLATION DOMAIN, PEPTIDYL CARRIER PROTEIN, NON- KEYWDS 2 RIBOSOMAL PEPTIDE SYNTHETASE, NRPS, PANTETHEINE, VINYLSULFONAMIDE, KEYWDS 3 VALINE ADENYLATION, LIGASE-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.A.MITCHELL,C.SHI,C.C.ALDRICH,A.M.GULICK REVDAT 3 13-SEP-23 4DG9 1 REMARK REVDAT 2 29-JUN-22 4DG9 1 COMPND REMARK SEQADV FORMUL REVDAT 2 2 1 LINK REVDAT 1 02-MAY-12 4DG9 0 JRNL AUTH C.A.MITCHELL,C.SHI,C.C.ALDRICH,A.M.GULICK JRNL TITL STRUCTURE OF PA1221, A NONRIBOSOMAL PEPTIDE SYNTHETASE JRNL TITL 2 CONTAINING ADENYLATION AND PEPTIDYL CARRIER PROTEIN DOMAINS. JRNL REF BIOCHEMISTRY V. 51 3252 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22452656 JRNL DOI 10.1021/BI300112E REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 24977 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1275 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 53.9779 - 5.3111 0.99 2769 148 0.1797 0.2386 REMARK 3 2 5.3111 - 4.2161 1.00 2669 164 0.1332 0.1928 REMARK 3 3 4.2161 - 3.6833 1.00 2634 141 0.1506 0.2023 REMARK 3 4 3.6833 - 3.3466 1.00 2601 149 0.1742 0.2118 REMARK 3 5 3.3466 - 3.1067 1.00 2620 134 0.1898 0.2605 REMARK 3 6 3.1067 - 2.9236 1.00 2620 138 0.2048 0.2670 REMARK 3 7 2.9236 - 2.7772 1.00 2586 141 0.2286 0.3099 REMARK 3 8 2.7772 - 2.6563 1.00 2599 122 0.2541 0.2840 REMARK 3 9 2.6563 - 2.5500 1.00 2604 138 0.2845 0.3587 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.31 REMARK 3 B_SOL : 31.68 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.840 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.350 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.07370 REMARK 3 B22 (A**2) : 4.33790 REMARK 3 B33 (A**2) : -2.26420 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 4455 REMARK 3 ANGLE : 1.356 6069 REMARK 3 CHIRALITY : 0.095 690 REMARK 3 PLANARITY : 0.007 798 REMARK 3 DIHEDRAL : 16.071 1608 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 16:110) REMARK 3 ORIGIN FOR THE GROUP (A): 2.1093 -53.5518 -13.1693 REMARK 3 T TENSOR REMARK 3 T11: 0.0686 T22: 0.0310 REMARK 3 T33: 0.0335 T12: 0.0121 REMARK 3 T13: 0.0068 T23: 0.0184 REMARK 3 L TENSOR REMARK 3 L11: 0.1322 L22: 0.0985 REMARK 3 L33: 0.2176 L12: -0.0141 REMARK 3 L13: 0.0272 L23: -0.0308 REMARK 3 S TENSOR REMARK 3 S11: -0.0153 S12: -0.0045 S13: -0.0496 REMARK 3 S21: -0.0449 S22: -0.0220 S23: -0.0160 REMARK 3 S31: 0.0885 S32: 0.0222 S33: -0.0369 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 111:158) REMARK 3 ORIGIN FOR THE GROUP (A): 12.3116 -46.6795 -19.4583 REMARK 3 T TENSOR REMARK 3 T11: 0.1889 T22: 0.1938 REMARK 3 T33: 0.1596 T12: 0.0063 REMARK 3 T13: 0.0354 T23: 0.0537 REMARK 3 L TENSOR REMARK 3 L11: 0.1249 L22: 0.1611 REMARK 3 L33: 0.1955 L12: 0.1023 REMARK 3 L13: -0.0219 L23: 0.0607 REMARK 3 S TENSOR REMARK 3 S11: 0.0848 S12: 0.0477 S13: -0.0034 REMARK 3 S21: -0.1092 S22: -0.0277 S23: -0.2597 REMARK 3 S31: 0.1051 S32: 0.1076 S33: 0.0192 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 159:375) REMARK 3 ORIGIN FOR THE GROUP (A): -8.2286 -39.1915 -2.6720 REMARK 3 T TENSOR REMARK 3 T11: 0.0242 T22: 0.0743 REMARK 3 T33: 0.0649 T12: 0.0256 REMARK 3 T13: 0.0286 T23: -0.0140 REMARK 3 L TENSOR REMARK 3 L11: 0.4205 L22: 0.2722 REMARK 3 L33: 0.2342 L12: -0.0501 REMARK 3 L13: -0.1270 L23: -0.0470 REMARK 3 S TENSOR REMARK 3 S11: -0.0351 S12: -0.1080 S13: 0.0763 REMARK 3 S21: 0.0549 S22: 0.0518 S23: 0.0363 REMARK 3 S31: -0.0123 S32: 0.0019 S33: 0.0098 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 376:404) REMARK 3 ORIGIN FOR THE GROUP (A): 4.6609 -37.5701 13.2333 REMARK 3 T TENSOR REMARK 3 T11: 0.2737 T22: 0.3206 REMARK 3 T33: 0.0945 T12: 0.0130 REMARK 3 T13: -0.0401 T23: -0.0339 REMARK 3 L TENSOR REMARK 3 L11: 0.1651 L22: 0.4567 REMARK 3 L33: 0.0608 L12: 0.0958 REMARK 3 L13: 0.0255 L23: -0.0566 REMARK 3 S TENSOR REMARK 3 S11: 0.0342 S12: -0.1980 S13: 0.0027 REMARK 3 S21: 0.3230 S22: -0.0670 S23: -0.0438 REMARK 3 S31: -0.0210 S32: 0.0696 S33: -0.0113 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 405:535) REMARK 3 ORIGIN FOR THE GROUP (A): 0.7158 -15.7269 -8.3642 REMARK 3 T TENSOR REMARK 3 T11: 0.2569 T22: 0.0767 REMARK 3 T33: 0.2949 T12: -0.0106 REMARK 3 T13: -0.0316 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 0.4209 L22: 0.2587 REMARK 3 L33: 0.3878 L12: 0.0938 REMARK 3 L13: -0.3138 L23: -0.0149 REMARK 3 S TENSOR REMARK 3 S11: -0.0429 S12: -0.0885 S13: 0.1723 REMARK 3 S21: -0.0524 S22: 0.0478 S23: 0.0356 REMARK 3 S31: -0.1678 S32: 0.0600 S33: -0.0523 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 536:602) REMARK 3 ORIGIN FOR THE GROUP (A): -11.6244 -18.2808 -25.9025 REMARK 3 T TENSOR REMARK 3 T11: 0.2301 T22: 0.2959 REMARK 3 T33: 0.2868 T12: -0.0208 REMARK 3 T13: -0.0648 T23: 0.1648 REMARK 3 L TENSOR REMARK 3 L11: 0.1177 L22: 0.3417 REMARK 3 L33: 0.5237 L12: -0.1155 REMARK 3 L13: 0.0697 L23: 0.2634 REMARK 3 S TENSOR REMARK 3 S11: -0.0205 S12: 0.2491 S13: 0.1702 REMARK 3 S21: -0.1835 S22: 0.1060 S23: 0.1393 REMARK 3 S31: 0.0915 S32: -0.0432 S33: 0.3953 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4DG9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000070290. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-10 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : SSRL 9-2 REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25006 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 55.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.57100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4DG8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% METHYLETHER PEG 8000, 50 MM HEPES, REMARK 280 0.18 MM VAL-AVS, PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.02500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.02500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 26.59500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 115.59000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.59500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 115.59000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 61.02500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.59500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 115.59000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 61.02500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.59500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 115.59000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 SER A 3 REMARK 465 PHE A 4 REMARK 465 PHE A 5 REMARK 465 ARG A 6 REMARK 465 LYS A 7 REMARK 465 LYS A 8 REMARK 465 ALA A 9 REMARK 465 ILE A 10 REMARK 465 VAL A 11 REMARK 465 ARG A 12 REMARK 465 MET A 13 REMARK 465 SER A 14 REMARK 465 GLN A 15 REMARK 465 GLU A 511 REMARK 465 PRO A 512 REMARK 465 LEU A 513 REMARK 465 GLU A 514 REMARK 465 ARG A 515 REMARK 465 CYS A 516 REMARK 465 ALA A 517 REMARK 465 SER A 518 REMARK 465 ALA A 519 REMARK 465 ALA A 542 REMARK 465 ASP A 543 REMARK 465 GLN A 544 REMARK 465 ARG A 603 REMARK 465 ALA A 604 REMARK 465 ALA A 605 REMARK 465 THR A 606 REMARK 465 PRO A 607 REMARK 465 GLU A 608 REMARK 465 GLN A 609 REMARK 465 PRO A 610 REMARK 465 LEU A 611 REMARK 465 VAL A 612 REMARK 465 LEU A 613 REMARK 465 SER A 614 REMARK 465 ARG A 615 REMARK 465 SER A 616 REMARK 465 ALA A 617 REMARK 465 ALA A 618 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN A 137 CG OD1 ND2 REMARK 470 GLU A 347 CG CD OE1 OE2 REMARK 470 GLU A 406 CG CD OE1 OE2 REMARK 470 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 451 CG CD OE1 OE2 REMARK 470 ARG A 475 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 487 CG1 CG2 REMARK 470 LEU A 494 CG CD1 CD2 REMARK 470 ARG A 502 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 521 CG OD1 OD2 REMARK 470 GLN A 524 CG CD OE1 NE2 REMARK 470 ARG A 525 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 533 OE1 OE2 REMARK 470 VAL A 539 CG1 CG2 REMARK 470 LEU A 548 CG CD1 CD2 REMARK 470 LEU A 574 CG CD1 CD2 REMARK 470 ASP A 576 CG OD1 OD2 REMARK 470 ARG A 582 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 585 CG CD OE1 NE2 REMARK 470 SER A 587 OG REMARK 470 ARG A 588 NE CZ NH1 NH2 REMARK 470 LEU A 589 CG CD1 CD2 REMARK 470 ARG A 591 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 595 CG CD1 CD2 REMARK 470 ARG A 599 NE CZ NH1 NH2 REMARK 470 LEU A 600 CG CD1 CD2 REMARK 470 LEU A 601 CD1 CD2 REMARK 470 GLU A 602 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO A 148 C - N - CA ANGL. DEV. = 9.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 SER A 17 -14.09 86.95 REMARK 500 ALA A 136 -73.01 -76.02 REMARK 500 ASN A 137 -21.96 72.78 REMARK 500 PRO A 148 -19.26 -47.87 REMARK 500 ALA A 149 75.90 66.39 REMARK 500 ALA A 150 -177.48 -62.12 REMARK 500 PRO A 151 68.76 -60.82 REMARK 500 ALA A 152 -20.04 63.46 REMARK 500 SER A 153 160.25 170.18 REMARK 500 ASN A 208 -51.99 -135.12 REMARK 500 THR A 313 79.82 65.79 REMARK 500 THR A 314 -92.47 73.09 REMARK 500 ARG A 389 -125.67 45.59 REMARK 500 ILE A 413 -61.39 -99.23 REMARK 500 VAL A 539 -157.50 -79.06 REMARK 500 LEU A 574 -65.54 -90.75 REMARK 500 ALA A 575 -75.53 -48.09 REMARK 500 LEU A 577 -64.41 -91.09 REMARK 500 SER A 581 -9.74 -55.82 REMARK 500 LEU A 583 -18.03 86.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO A 151 ALA A 152 139.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DG9 A 701 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DG8 RELATED DB: PDB REMARK 900 APO-PA1221 DBREF 4DG9 A 1 618 UNP Q9I4B7 Q9I4B7_PSEAE 1 618 SEQADV 4DG9 GLY A -1 UNP Q9I4B7 EXPRESSION TAG SEQADV 4DG9 HIS A 0 UNP Q9I4B7 EXPRESSION TAG SEQRES 1 A 620 GLY HIS MET ASP SER PHE PHE ARG LYS LYS ALA ILE VAL SEQRES 2 A 620 ARG MET SER GLN ASN SER LEU LEU ASP LEU TYR ALA HIS SEQRES 3 A 620 PRO THR VAL VAL ALA ARG PHE SER GLU MET ALA ALA LEU SEQRES 4 A 620 HIS PRO HIS ARG GLU ALA ILE ARG ASP ARG PHE GLY SER SEQRES 5 A 620 VAL ASP TYR ARG GLN LEU LEU ASP SER ALA GLU GLN LEU SEQRES 6 A 620 SER ASP TYR LEU LEU GLU HIS TYR PRO GLN PRO GLY VAL SEQRES 7 A 620 CYS LEU GLY VAL TYR GLY GLU TYR SER ARG GLU SER ILE SEQRES 8 A 620 THR CYS LEU LEU ALA ILE LEU LEU SER GLY HIS HIS TYR SEQRES 9 A 620 LEU TYR ILE ASP LEU LYS GLN PRO ALA ALA TRP ASN ALA SEQRES 10 A 620 GLU LEU CYS ARG GLN VAL ASP CYS ARG LEU ILE LEU ASP SEQRES 11 A 620 CYS SER THR THR PRO THR PRO ALA ASN GLY LEU PRO CYS SEQRES 12 A 620 VAL PRO VAL ARG HIS LEU PRO ALA ALA PRO ALA SER VAL SEQRES 13 A 620 ALA ARG PRO CYS PHE ALA ALA ASP GLN ILE ALA TYR ILE SEQRES 14 A 620 ASN PHE SER SER GLY THR THR GLY ARG PRO LYS ALA ILE SEQRES 15 A 620 ALA CYS THR HIS ALA GLY ILE THR ARG LEU CYS LEU GLY SEQRES 16 A 620 GLN SER PHE LEU ALA PHE ALA PRO GLN MET ARG PHE LEU SEQRES 17 A 620 VAL ASN SER PRO LEU SER PHE ASP ALA ALA THR LEU GLU SEQRES 18 A 620 ILE TRP GLY ALA LEU LEU ASN GLY GLY CYS CYS VAL LEU SEQRES 19 A 620 ASN ASP LEU GLY PRO LEU ASP PRO GLY VAL LEU ARG GLN SEQRES 20 A 620 LEU ILE GLY GLU ARG GLY ALA ASP SER ALA TRP LEU THR SEQRES 21 A 620 ALA SER LEU PHE ASN THR LEU VAL ASP LEU ASP PRO ASP SEQRES 22 A 620 CYS LEU GLY GLY LEU ARG GLN LEU LEU THR GLY GLY ASP SEQRES 23 A 620 ILE LEU SER VAL PRO HIS VAL ARG ARG ALA LEU LEU ARG SEQRES 24 A 620 HIS PRO ARG LEU HIS LEU VAL ASN GLY TYR GLY PRO THR SEQRES 25 A 620 GLU ASN THR THR PHE THR CYS CYS HIS VAL VAL THR ASP SEQRES 26 A 620 ASP ASP LEU GLU GLU ASP ASP ILE PRO ILE GLY LYS ALA SEQRES 27 A 620 ILE ALA GLY THR ALA VAL LEU LEU LEU ASP GLU HIS GLY SEQRES 28 A 620 GLN GLU ILE ALA GLU PRO ASP ARG ALA GLY GLU ILE VAL SEQRES 29 A 620 ALA PHE GLY ALA GLY LEU ALA GLN GLY TYR ARG ASN ASP SEQRES 30 A 620 ALA ALA ARG THR ARG ALA SER PHE VAL GLU LEU PRO TYR SEQRES 31 A 620 ARG GLY ARG LEU LEU ARG ALA TYR ARG THR GLY ASP ARG SEQRES 32 A 620 ALA ARG TYR ASP GLU GLN GLY ARG LEU ARG PHE ILE GLY SEQRES 33 A 620 ARG GLY ASP GLY GLN VAL LYS LEU ASN GLY TYR ARG LEU SEQRES 34 A 620 ASP LEU PRO ALA LEU GLU GLN ARG PHE ARG ARG GLN PRO SEQRES 35 A 620 GLY ILE LEU ASP CYS ALA LEU LEU VAL ARG GLU ARG ASN SEQRES 36 A 620 GLY VAL LYS GLN LEU LEU CYS ALA TRP THR GLY LYS ALA SEQRES 37 A 620 ASP ALA SER PRO GLN ALA LEU LEU ARG GLN LEU PRO THR SEQRES 38 A 620 TRP GLN ARG PRO HIS ALA CYS VAL ARG VAL GLU ALA LEU SEQRES 39 A 620 PRO LEU THR ALA HIS GLY LYS LEU ASP ARG ALA ALA LEU SEQRES 40 A 620 LEU ARG ARG LEU GLU GLU PRO LEU GLU ARG CYS ALA SER SEQRES 41 A 620 ALA LEU ASP PRO ASP GLN ARG GLY CYS ALA GLN LEU TRP SEQRES 42 A 620 SER GLU LEU LEU GLY CYS GLU VAL GLY ALA ALA ASP GLN SEQRES 43 A 620 ASP PHE PHE LEU CYS GLY GLY ASN SER LEU LEU ALA LEU SEQRES 44 A 620 GLN LEU VAL ALA LEU CYS GLN SER ALA GLY ALA GLY ALA SEQRES 45 A 620 ASN LEU GLY LEU ALA ASP LEU GLN ALA ASN SER ARG LEU SEQRES 46 A 620 ASP GLN PHE SER ARG LEU LEU ARG SER HIS GLY LEU ALA SEQRES 47 A 620 PRO GLU ARG LEU LEU GLU ARG ALA ALA THR PRO GLU GLN SEQRES 48 A 620 PRO LEU VAL LEU SER ARG SER ALA ALA HET DG9 A 701 50 HETNAM DG9 5'-({[(2R,3R)-3-AMINO-2-{[2-({N-[(2R)-2-HYDROXY-3,3- HETNAM 2 DG9 DIMETHYL-4-{[OXIDO(OXO)PHOSPHONIO]OXY}BUTANOYL]-BETA- HETNAM 3 DG9 ALANYL}AMINO)ETHYL]SULFANYL}-4- HETNAM 4 DG9 METHYLPENTYL]SULFONYL}AMINO)-5'-DEOXYADENOSINE FORMUL 2 DG9 C27 H48 N9 O12 P S2 FORMUL 3 HOH *117(H2 O) HELIX 1 1 ASP A 20 HIS A 24 5 5 HELIX 2 2 THR A 26 HIS A 38 1 13 HELIX 3 3 TYR A 53 TYR A 71 1 19 HELIX 4 4 SER A 85 SER A 98 1 14 HELIX 5 5 PRO A 110 ASP A 122 1 13 HELIX 6 6 HIS A 184 LEU A 192 1 9 HELIX 7 7 ASP A 214 LEU A 225 1 12 HELIX 8 8 ASP A 239 GLU A 249 1 11 HELIX 9 9 ALA A 259 ASP A 269 1 11 HELIX 10 10 PRO A 270 GLY A 274 5 5 HELIX 11 11 SER A 287 HIS A 298 1 12 HELIX 12 12 PRO A 309 THR A 313 5 5 HELIX 13 13 THR A 322 GLU A 328 5 7 HELIX 14 14 ASP A 375 SER A 382 1 8 HELIX 15 15 LEU A 429 ARG A 438 1 10 HELIX 16 16 GLU A 451 VAL A 455 5 5 HELIX 17 17 PRO A 470 LEU A 477 1 8 HELIX 18 18 PRO A 478 ARG A 482 5 5 HELIX 19 19 ASP A 501 GLU A 510 1 10 HELIX 20 20 ASP A 523 GLY A 536 1 14 HELIX 21 21 ASN A 552 ALA A 566 1 15 HELIX 22 22 LEU A 574 ALA A 579 1 6 HELIX 23 23 LEU A 583 GLY A 594 1 12 HELIX 24 24 PRO A 597 GLU A 602 5 6 SHEET 1 A 4 GLY A 49 ASP A 52 0 SHEET 2 A 4 GLU A 42 ASP A 46 -1 N ASP A 46 O GLY A 49 SHEET 3 A 4 CYS A 229 LEU A 232 1 O CYS A 230 N ALA A 43 SHEET 4 A 4 ARG A 204 VAL A 207 1 N PHE A 205 O VAL A 231 SHEET 1 B 4 HIS A 101 TYR A 104 0 SHEET 2 B 4 CYS A 77 TYR A 81 1 N LEU A 78 O HIS A 101 SHEET 3 B 4 CYS A 123 ASP A 128 1 O LEU A 127 N GLY A 79 SHEET 4 B 4 CYS A 141 PRO A 143 1 O VAL A 142 N ILE A 126 SHEET 1 C 3 ILE A 164 PHE A 169 0 SHEET 2 C 3 ALA A 179 THR A 183 -1 O ILE A 180 N ASN A 168 SHEET 3 C 3 TYR A 372 ARG A 373 -1 O ARG A 373 N ALA A 179 SHEET 1 D 5 SER A 254 THR A 258 0 SHEET 2 D 5 GLN A 278 GLY A 282 1 O LEU A 280 N ALA A 255 SHEET 3 D 5 HIS A 302 TYR A 307 1 O HIS A 302 N LEU A 279 SHEET 4 D 5 CYS A 317 VAL A 320 -1 O CYS A 317 N TYR A 307 SHEET 5 D 5 LYS A 335 ALA A 336 -1 O LYS A 335 N CYS A 318 SHEET 1 E 4 THR A 340 LEU A 345 0 SHEET 2 E 4 GLY A 359 GLY A 365 -1 O PHE A 364 N ALA A 341 SHEET 3 E 4 LEU A 392 TYR A 404 -1 O ASP A 400 N ILE A 361 SHEET 4 E 4 PHE A 383 PRO A 387 -1 N VAL A 384 O ALA A 395 SHEET 1 F 4 THR A 340 LEU A 345 0 SHEET 2 F 4 GLY A 359 GLY A 365 -1 O PHE A 364 N ALA A 341 SHEET 3 F 4 LEU A 392 TYR A 404 -1 O ASP A 400 N ILE A 361 SHEET 4 F 4 LEU A 410 ARG A 415 -1 O GLY A 414 N ARG A 401 SHEET 1 G 2 GLN A 419 LEU A 422 0 SHEET 2 G 2 TYR A 425 ASP A 428 -1 O TYR A 425 N LEU A 422 SHEET 1 H 3 ILE A 442 ARG A 450 0 SHEET 2 H 3 GLN A 457 GLY A 464 -1 O LEU A 459 N LEU A 448 SHEET 3 H 3 ALA A 485 ARG A 488 1 O VAL A 487 N TRP A 462 LINK OG SER A 553 P2A DG9 A 701 1555 1555 1.62 SITE 1 AC1 27 PRO A 210 ASP A 214 GLY A 282 GLY A 283 SITE 2 AC1 27 ASP A 284 ILE A 285 ASN A 305 GLY A 306 SITE 3 AC1 27 TYR A 307 GLY A 308 PRO A 309 THR A 310 SITE 4 AC1 27 THR A 314 ASP A 400 LYS A 421 ASN A 423 SITE 5 AC1 27 GLY A 424 TYR A 425 ARG A 426 SER A 553 SITE 6 AC1 27 HOH A 844 HOH A 865 HOH A 869 HOH A 870 SITE 7 AC1 27 HOH A 887 HOH A 889 HOH A 894 CRYST1 53.190 231.180 122.050 90.00 90.00 90.00 C 2 2 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.018801 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004326 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008193 0.00000